PASS2
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Superfamily Details

Superfamily summary
Superfamily Name:  tRNA-binding arm
Class Name:  All alpha proteins
Fold Name:  Long alpha-hairpin
Number of Members:  4
Average Size: 
Members
SCOP ID Name Source
d1seta1 Seryl-tRNA synthetase (SerRS) Thermus thermophilus, strain hb27 [TaxId: 274]
d2iy5a1 Phenylalanyl-tRNA synthetase (PheRS) Thermus thermophilus [TaxId: 274]
d1ivsa1 Valyl-tRNA synthetase (ValRS) C-terminal domain Thermus thermophilus [TaxId: 274]
d1lrza1 Methicillin resistance protein FemA probable tRNA-binding arm Staphylococcus aureus [TaxId: 1280]

Alignment Based On Similarities In Structural Features using Comparer

                             10        20        30        40        50  
d1ivsa1  ( 797 )                                   dveewrrrqekrlkeLlal
d1lrza1  ( 245 )                                    fdeyikeLneerdilnkd
d1seta1  (   1 )    mVdlkrLrqepevFhrAIrekgvaLdLeaLlalDreVqelkkrlqeVqte
d2iy5a1  (  15 )                                          leelkalkaryl
                                                     aaaaaaaaaaaaaaaaa

                             60        70        80        90        100 
d1ivsa1  ( 816 )    aerSqrklaspg--frekapkevveaeearlkenl-eqAerirealsqig
d1lrza1  ( 263 )    lnkalkdie--------krp--enkkahnkrdnLq-qqLdaneqkieeGk
d1seta1  (  51 )    rnqvakrvp--------kAppeekealiargkaLg-eeAkrleealreke
d2iy5a1  (  27 )    gkkglltqemkglsalpleerrkrgqelnaikaaleaalearekaleeaa
                    aaaaaaa               aaaaaaaaaaaaa aaaaaaaaaaaa a

                             110       
d1ivsa1                                
d1lrza1  ( 302 )    rlqeehgn           
d1seta1  (  92 )    arLealLlqVplppwpgap
d2iy5a1  (  77 )    lkealere           
                    aaaaaa             

solvent inaccessible: UPPER CASE X
solvent accesible: lower case x
alpha helix: red x
beta strand: blue x
3 - 10 helix: maroon x
hydrogen bond to main chain amide: bold x
hydrogen bond to mainchain carbonyl: underline x
disulphide bond: cedilla ç
positive phi: italic x

Jmol view

Jmol Model View
Jmol Command prompt
Response Logs

Tree based on RMSD between structures

Matrices

1. Percentage Identity Matrix  [View | Download]
2. Distance Matrix  [View | Download]

PCA based on sequence identity

1. PCA  [View]
2. Plot file  [Download]

CUSP Results

CUSP Result   [View | Download]

Alistat - Alignment Statistics

Alignment Statistics  [Download]

SMotif - Conserved Structural Motifs

SMotif Result   [View | Download]

MeanRMS

MeanRMS  [Download]